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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
403
total RNA-seq
88
ATAC-seq
74
single cell RNA-seq
51
WGBS
11
snATAC-seq
10
MeRIP-seq
9
Hi-C
2
Capture-C
2
RRBS
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
479
Transcription
99
DNA accessibility
DNA binding
53
DNA methylation
9
3D chromatin structure
Target of assay
5
control
5
nucleotide modification
Date released
157
July, 2018
89
August, 2017
86
May, 2022
57
May, 2021
56
February, 2023
39
April, 2018
32
February, 2021
26
September, 2018
22
November, 2019
19
September, 2020
11
March, 2020
10
November, 2020
8
January, 2021
7
August, 2020
6
July, 2019
5
March, 2019
4
August, 2021
4
November, 2018
4
October, 2019
3
August, 2018
3
October, 2022
2
October, 2018
1
August, 2022
1
February, 2020
1
June, 2018
1
October, 2017
Available data
491
bam
462
bigWig
417
tsv
324
fastq
80
zippedFastqFolder
bed narrowPeak
32
bigBed narrowPeak
9
bed broadPeak
8
bed bed3+
7
bedpe bed3+
7
bigBed broadPeak
7
hic
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
cool
1
bedpe
1
hdf5
Organism
653
Homo sapiens
Biosample type
338
tissue
254
primary cell
62
cell line
Organ
654
pancreas
514
connective tissue
412
adipose tissue
341
epithelium
211
liver
182
heart
158
kidney
151
bone element
76
vasculature
75
blood vessel
58
artery
35
brain
25
eye
24
musculature of body
20
lung
15
embryo
12
limb
9
blood
9
bodily fluid
8
skeleton
5
nerve
3
spleen
2
intestine
2
pericardium
2
thymus
2
vein
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
ovary
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
472
AMP
152
HPAP
30
T1D
Genome assembly (visualization)
424
GRCh38
423
hg19
Lab
451
AMP-T2D consortium
152
Klaus Kaestner, Upenn
33
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
4
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
65
inconsistent ontology term
4
audit script error
Audit category:
1
inconsistent assembly
assay_slims!
DNA binding
files.file_type!
bed narrowPeak
BIOSAMPLE
ASSAY
654 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
WGBS
snATAC-seq
MeRIP-seq
Hi-C
Capture-C
RRBS
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
tissue
islet of Langerhans
284
21
7
4
3
1
pancreas
2
2
4
1
1
1
body of pancreas
3
2
2
primary cell
pancreatic alpha cell
52
29
12
31
1
pancreatic beta cell
21
16
12
16
1
pancreatic acinar cell
4
4
12
1
pancreatic ductal cell
4
10
pancreatic delta cell
11
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cell line
EndoC_BH1
33
18
6
1
2
1
Panc1
1
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